Detection of remote homology by comparison of protein language model representations
☆63Dec 16, 2024Updated last year
Alternatives and similar repositories for pLM-BLAST
Users that are interested in pLM-BLAST are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Prediction and re-engineering of the cofactor specificity of Rossmann-fold proteins☆14Nov 5, 2023Updated 2 years ago
- Python package to manage protein structures and their annotations☆46Mar 18, 2026Updated 2 months ago
- Neural Networks for Protein Sequence Alignment☆138Nov 11, 2024Updated last year
- CLANS_2 is a Python-based program for clustering sequences in the 2D or 3D space, based on their sequence similarities. CLANS visualizes …☆26Dec 5, 2024Updated last year
- Fast protein domain structure embedding+search tool☆30Sep 21, 2025Updated 8 months ago
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- List of papers on protein binding site prediction☆11Aug 11, 2023Updated 2 years ago
- Repository for Protein-Vec, a protein embedding mixture of experts model☆38Jan 24, 2024Updated 2 years ago
- ☆76Sep 25, 2024Updated last year
- Fast protein structure searching or your money back☆119Apr 13, 2026Updated last month
- ☆23Jul 14, 2023Updated 2 years ago
- Fast indexing and search of discontinuous motifs in protein structures☆144Apr 23, 2026Updated last month
- PLMSearch enables accurate and fast homologous protein search with only sequences as input☆80Sep 9, 2025Updated 9 months ago
- A lightweight platform-accelerated library for biological motif scanning using position weight matrices.☆63Mar 25, 2026Updated 2 months ago
- A protein structure dataset that combines 3D atomic coordinates with biophysical and evolutionary properties for every atom in every "cle…☆38Jul 25, 2024Updated last year
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Protein Structure Archiver☆15Sep 10, 2025Updated 9 months ago
- Universal Structure Alignment of Monomeric and Complex Structure of Nucleic Acids and Proteins☆180Jun 3, 2026Updated last week
- Implementation code for the paper "Aggregating Residue-Level Protein Language Model Embeddings with Optimal Transport"☆25May 3, 2025Updated last year
- Deep learning based prediction of pi-helices in protein sequences☆11Mar 24, 2023Updated 3 years ago
- ☆15Jan 28, 2026Updated 4 months ago
- Binding pocket optimization based on force fields and docking scoring functions☆38Mar 19, 2025Updated last year
- Foldseek enables fast and sensitive comparisons of large structure sets.☆1,248May 13, 2026Updated 3 weeks ago
- Protein structure alignment and search algorithm☆81Jun 1, 2026Updated last week
- Structure-Informed Protein Language Model☆38Feb 15, 2024Updated 2 years ago
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Explore protein fold space with deep generative models☆16Aug 5, 2024Updated last year
- Metabuli: specific and sensitive metagenomic classification via joint analysis of DNA and amino acid.☆179Apr 6, 2026Updated 2 months ago
- PLMAlign utilizes per-residue embeddings as input to obtain specific alignments and more refined similarity☆20Sep 9, 2025Updated 9 months ago
- Protein language model trained on coding DNA☆54Oct 20, 2024Updated last year
- EMERALD calculates safety-windows by exploring the suboptimal alignment space☆18Jan 13, 2026Updated 4 months ago
- Alignment-free structure prediction using protein language models☆22Nov 2, 2022Updated 3 years ago
- FAPLM: A Drop-in Efficient Pytorch Implementation of Protein Language Models☆168Mar 28, 2026Updated 2 months ago
- ☆88Feb 11, 2026Updated 4 months ago
- Python tool for the discovery of similar 3D structural motifs across protein structures.☆36Nov 18, 2023Updated 2 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Generative diverse protein backbones by protein language model☆35Feb 27, 2026Updated 3 months ago
- Sandbox for Deep-Learning based Computational Protein Design☆121Dec 11, 2025Updated 6 months ago
- Cython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.☆43Mar 24, 2026Updated 2 months ago
- A python implementation of pdb2oniom for QM/MM (ONIOM) calculations☆12Oct 2, 2025Updated 8 months ago
- Get protein embeddings from protein sequences☆508Apr 28, 2023Updated 3 years ago
- Algorithm for ultra-scale multiple sequence alignments (3M protein sequences in 5 minutes and 24 GB of RAM)☆256Apr 15, 2026Updated last month
- Multiple Protein Structure Alignment at Scale with FoldMason☆278May 11, 2026Updated last month